3.5.1.88: peptide deformylase

This is an abbreviated version!
For detailed information about peptide deformylase, go to the full flat file.

Reaction

Synonyms

AtDEF1.1, AtDEF1.2, AtDEF2, AtPDF1A, AtPDF1B, AtPDF1Bt, AtPDF2, BbPDF, BcPDF, BcPDF2, DEF, Def1, DEF2, deformylase, peptide N-formylmethionine, EC 3.5.1.27, EcPDF, ECPDF1B, EfPDF, HpPDF, HsPDF, hydrolase, aminoacyl-transfer ribonucleate, LiPDF, mPDF, Ni-peptide deformylase, PDF, PDF-1, PDF-2, PDF1A, PDF1B, PDF2, PdfA, PdfB, PdfC, peptide deformylase, peptide deformylase 1, peptide deformylase 1A, peptide deformylase 1B, peptide deformylase 2, Pf PDF, PfPDF, Polypeptide deformylase, SaPDF, sPDF, TbPDF1, TbPDF2, type I PDF, type II PDF, type II peptide deformylase, Vp 16 PDF1B, Vp16 PDF, Vp16T, XOO1075, XoPDF

ECTree

     3 Hydrolases

         3.5 Acting on carbon-nitrogen bonds, other than peptide bonds

             3.5.1 In linear amides

                3.5.1.88 peptide deformylase

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Results	in table
4	Activating Compound
61475	AA Sequence
102	Application
4	CAS Registry Number
79	Cloned(Commentary)
59	Crystallization (Commentary)
157	Disease/ Diagnostics
4	Expression
124	General Information
18	General Stability
565	IC50 Value
1419	Inhibitors
17	kcat/KM [mM/s]
169	Ki Value [mM]
154	KM Value [mM]
25	Localization
199	Metals/Ions
27	Molecular Weight [Da]
95	Natural Substrates/ Products (Substrates)
1	Organic Solvent Stability
471	Organism
16	Oxidation Stability
250	PDB ID
26	pH Optimum
8	pH Range
2	pH Stability
1	pI Value
89	Protein Variants
75	Purification (Commentary)
1	Reaction
38	Reaction Type
252	Reference
3	Renatured (Commentary)
53	Source Tissue
8	Specific Activity [micromol/min/mg]
7	Storage Stability
354	Substrates and Products (Substrate)
44	Subunits
285	Synonyms
1	Systematic Name
21	Temperature Optimum [°C]
3	Temperature Range [°C]
13	Temperature Stability [°C]
130	Turnover Number [1/s]

Organism

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of the Enzyme Summary Page.

Organism on EC 3.5.1.88 - peptide deformylase

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ORGANISM

COMMENTARY

LITERATURE

UNIPROT

SEQUENCE DB

SOURCE

Arabidopsis sp.

2 entries

Arabidopsis thaliana

8 entries

Bacillus cereus

2 entries

Bacillus subtilis

3 entries

Bacillus subtilis 168

type II PDF

756536

P94462

UniProt

brenda

Bacteria

-

671914, 755798

-

-

brenda

Bacteroides fragilis

-

711950

-

-

brenda

Borreliella burgdorferi

-

684694

-

-

brenda

Calothrix sp.

-

393820

-

-

brenda

Campylobacter jejuni

gene def

733023

-

-

brenda

Chlamydia trachomatis

-

720391

-

-

brenda

Chlamydia trachomatis GR10

-

720391

-

-

brenda

Clostridium beijerinckii

-

393823

-

-

brenda

Enterobacter cloacae

-

711950

-

-

brenda

Enterococcus faecalis

-

393798

-

-

brenda

Enterococcus faecium

-

696044, 713480

Q842S4

UniProt

brenda

Enterococcus sp.

-

711950

-

-

brenda

Escherichia coli

23 entries

Escherichia coli ATCC 11775

-

757017

-

-

brenda

Geobacillus stearothermophilus

2 entries

Glycine max

3D homology model of the matured soybean PDF2 based on the X-ray structure of the homologous enzyme from Plasmodium falciparum

675278

-

-

brenda

Haemophilus influenzae

2 entries

Haemophilus influenzae ATCC 51907

-

756536

P44786

UniProt

brenda

Haemophilus influenzae DSM 11121

-

756536

P44786

UniProt

brenda

Haemophilus influenzae KW20

-

756536

P44786

UniProt

brenda

Haemophilus influenzae RD

-

756536

P44786

UniProt

brenda

Helicobacter pylori

3 entries

Helicobacter pylori 26695

type I PDF

756536

P56419

UniProt

brenda

Helicobacter pylori ATCC 700392

type I PDF

756536

P56419

UniProt

brenda

Helicobacter pylori SS1

-

654454

Q672W7

Uniprot

brenda

Homo sapiens

9 entries

Klebsiella pneumoniae

-

711950

-

-

brenda

Lactococcus lactis

-

393820

-

-

brenda

Legionella pneumophila

-

687372

-

-

brenda

Legionella pneumophila Philadelphia 1

-

687372

-

-

brenda

Leptospira interrogans

5 entries

Moraxella catarrhalis

-

711950, 733109

-

-

brenda

Mycobacterium tuberculosis

5 entries

Mycobacterium tuberculosis ATCC 25618

type I PDF

756536

P9WIJ3

Uniprot

brenda

Mycobacterium tuberculosis H37Ra / ATCC 25177

-

698792

-

-

brenda

Mycobacterium tuberculosis H37Rv

3 entries

Mycobacterium tuberculosis variant bovis

-

711950

-

-

brenda

Neisseria gonorrhoeae

-

711950

-

-

brenda

no activity in Caenorhabditis elegans

-

393798

-

-

brenda

no activity in Saccharomyces cerevisiae

-

393798

-

-

brenda

Oryza sativa

-

700712

B6RGY0, Q5VNN5

UniProt

brenda

Plasmodium falciparum

4 entries

Plasmodium falciparum isolate 3D7

2 entries

Pseudomonas aeruginosa

5 entries

Salmonella enterica subsp. enterica serovar Typhimurium

gene def

734093

Q8ZLM7

UniProt

brenda

Solanum lycopersicum

2 entries

Staphylococcus aureus

11 entries

Staphylococcus aureus ATCC 25923

-

719052

-

-

brenda

Staphylococcus aureus ATCC 2913

strain ATCC2913

666015

P68826

Uniprot

brenda

Staphylococcus aureus ATCC 29213

-

719052

-

-

brenda

Staphylococcus aureus ATCC 43300

-

719052

-

-

brenda

Staphylococcus aureus ATCC 6538p

-

732998

-

-

brenda

Staphylococcus aureus CGMCC 1.8721

-

757785

P68826

Uniprot

brenda

Staphylococcus aureus Mu50

-

720445

-

-

brenda

Staphylococcus aureus RN4220

-

666013

P68826

Uniprot

brenda

Staphylococcus enteridis

-

697258

-

-

brenda

Staphylococcus epidermidis

3 entries

Staphylococcus epidermidis ATCC 12228

-

719052

-

-

brenda

Staphylococcus non-hemolyticus

-

697258

-

-

brenda

Stenotrophomonas maltophilia

-

711950

-

-

brenda

Streptococcus agalactiae

serotype III

758382

Q8E378

UniProt

brenda

Streptococcus agalactiae NEM316

serotype III

758382

Q8E378

UniProt

brenda

Streptococcus pneumoniae

3 entries

Streptococcus pyogenes

2 entries

Streptomyces pneumoniae

-

733109

-

-

brenda

Synechococcus phage S-SSM7

-

734011

E3SLL2

UniProt

brenda

Thermotoga maritima

2 entries

Thermotoga maritima MSB8 / DSM 3109 / ATCC 43589

-

666015

P96113

Uniprot

brenda

Thermus thermophilus

-

393803, 671161

-

-

brenda

Trypanosoma brucei

-

689043

-

-

brenda

Trypanosoma cruzi

-

720408

-

-

brenda

Trypanosoma sp.

-

393798

-

-

brenda

Vibrio phage VP16T

isolated from Vibrio parahaemolyticus strain 16

756111, 758394

Q6VT21

UniProt

brenda

Xanthomonas oryzae pv. oryzae

2 entries

Xanthomonas oryzae pv. oryzae KACC10331

-

757033

Q5H3Z2

UniProt

brenda

Xanthomonas oryzae pv. oryzae KXO85

-

757033

Q5H3Z2

UniProt

brenda

Arabidopsis sp.

-

689452

-

-

brenda

Arabidopsis sp.

peptide deformylase 1 and 2

393810

-

-

brenda

Arabidopsis thaliana

-

393798, 674518

-

-

brenda

Arabidopsis thaliana

-

685008

Q9FV53

SWissProt

brenda

Arabidopsis thaliana

-

688243

-

-

brenda

Arabidopsis thaliana

-

712871, 720800

Q9FUZ2

SWissProt

brenda

Arabidopsis thaliana

-

721088, 734011

-

-

brenda

Arabidopsis thaliana

-

758382

Q9FUZ2

SWissProt

brenda

Arabidopsis thaliana

precursor

688243

Q9FUZ2, Q9FV53

SWissProt

brenda

Arabidopsis thaliana

two classes of PDF: PDF1A and PDF1B

393809

-

-

brenda

Bacillus cereus

-

671162, 677041, 687465

-

-

brenda

Bacillus cereus

-

712871

Q819K2

Uniprot

brenda

Bacillus subtilis

-

393820, 393821, 688243, 710882, 711950

-

-

brenda

Bacillus subtilis

harbours two functional peptide deformylase: Def and YkrB. YkrB probably is the predominant deformylase

393819

-

-

brenda

Bacillus subtilis

type II PDF

756536

P94462

UniProt

brenda

Escherichia coli

-

393798, 393800, 393801, 393802, 393803, 393804, 393805, 393806, 393807, 393809, 393811, 393812, 393815

-

-

brenda

Escherichia coli

-

393816

P0A6K3

Uniprot

brenda

Escherichia coli

-

393817, 393818, 393821

-

-

brenda

Escherichia coli

-

393822

P0A6K3

Uniprot

brenda

Escherichia coli

-

654721, 656452, 657299

-

-

brenda

Escherichia coli

-

666013, 666015, 672572

P0A6K3

Uniprot

brenda

Escherichia coli

-

674160

-

-

brenda

Escherichia coli

-

675277

P0A6K3

Uniprot

brenda

Escherichia coli

-

675457, 675609, 676945, 682095, 685600

-

-

brenda

Escherichia coli

-

687059

P0A6K3

Uniprot

brenda

Escherichia coli

-

688243

-

-

brenda

Escherichia coli

-

688615, 688616

P0A6K3

Uniprot

brenda

Escherichia coli

-

689912

-

-

brenda

Escherichia coli

-

696309, 699764, 711208, 711311

P0A6K3

Uniprot

brenda

Escherichia coli

-

711415, 711950

-

-

brenda

Escherichia coli

-

712509, 712871, 756111, 756147, 756173, 756184, 756425, 756989

P0A6K3

Uniprot

brenda

Escherichia coli

-

757017

-

-

brenda

Escherichia coli

-

758382, 758394, 758500

P0A6K3

Uniprot

brenda

Escherichia coli

C-terminally truncated recombinant enzyme

393799

-

-

brenda

Escherichia coli

different strains

733786

-

-

brenda

Escherichia coli

gene def

735214

P0A6K3

Uniprot

brenda

Escherichia coli

recombinant enzyme

393808

-

-

brenda

Escherichia coli

type I PDF

756536

P0A6K3

Uniprot

brenda

Geobacillus stearothermophilus

-

393798, 393803

-

-

brenda

Geobacillus stearothermophilus

-

666013, 696765

O31410

Uniprot

brenda

Haemophilus influenzae

-

393815, 657299, 673200, 719067, 733109

-

-

brenda

Haemophilus influenzae

-

756536

P44786

UniProt

brenda

Helicobacter pylori

-

654454, 677015

Q672W7

Uniprot

brenda

Helicobacter pylori

-

733259

-

-

brenda

Helicobacter pylori

type I PDF

756536

P56419

UniProt

brenda

Homo sapiens

-

654445, 654721

-

-

brenda

Homo sapiens

-

675061

Q9HBH1

Uniprot

brenda

Homo sapiens

-

687836, 688243

-

-

brenda

Homo sapiens

-

699575

Q9HBH1

Uniprot

brenda

Homo sapiens

-

711950

-

-

brenda

Homo sapiens

-

712871

Q9HBH1

Uniprot

brenda

Homo sapiens

-

713456, 718759

-

-

brenda

Homo sapiens

-

733007, 733571, 757712

Q9HBH1

Uniprot

brenda

Homo sapiens

type I PDF

756536

Q9HBH1

Uniprot

brenda

Leptospira interrogans

-

393813

Q93LE9

Uniprot

brenda

Leptospira interrogans

-

654102

-

-

brenda

Leptospira interrogans

-

654420

Q93LE9

Uniprot

brenda

Leptospira interrogans

-

656537

-

-

brenda

Leptospira interrogans

-

674519

Q93LE9

Uniprot

brenda

Mycobacterium tuberculosis

-

671700, 674257

-

-

brenda

Mycobacterium tuberculosis

-

696653

P9WIJ3

Uniprot

brenda

Mycobacterium tuberculosis

-

698792, 711950, 719526

-

-

brenda

Mycobacterium tuberculosis

gene def

734093

P9WIJ3

Uniprot

brenda

Mycobacterium tuberculosis

type I PDF

756536

P9WIJ3

Uniprot

brenda

Mycobacterium tuberculosis H37Rv

-

696653

P9WIJ3

Uniprot

brenda

Mycobacterium tuberculosis H37Rv

-

719526

-

-

brenda

Mycobacterium tuberculosis H37Rv

type I PDF

756536

P9WIJ3

Uniprot

brenda

Plasmodium falciparum

-

393798, 393814, 666015, 677000, 711950

-

-

brenda

Plasmodium falciparum

-

758334

Q8I372

UniProt

brenda

Plasmodium falciparum

enzyme form 1 and 2

393814

-

-

brenda

Plasmodium falciparum

type I PDF

756536

Q8I372

UniProt

brenda

Plasmodium falciparum isolate 3D7

-

758334

Q8I372

UniProt

brenda

Plasmodium falciparum isolate 3D7

type I PDF

756536

Q8I372

UniProt

brenda

Pseudomonas aeruginosa

-

654057

-

-

brenda

Pseudomonas aeruginosa

-

711419

Q9I7A8

Uniprot

brenda

Pseudomonas aeruginosa

-

711950

-

-

brenda

Pseudomonas aeruginosa

strain ATCC27853

666013, 666015

Q9I7A8

Uniprot

brenda

Pseudomonas aeruginosa

two functional deformylases

393819

-

-

brenda

Solanum lycopersicum

-

393798

-

-

brenda

Solanum lycopersicum

two classes of PDF: PDF1A and PDF1B

393809

-

-

brenda

Staphylococcus aureus

-

393798, 654059, 656069, 657299

-

-

brenda

Staphylococcus aureus

-

666013

P68826

Uniprot

brenda

Staphylococcus aureus

-

672571, 672572, 677037, 697258, 711415, 711950, 719052, 719067

-

-

brenda

Staphylococcus aureus

-

720284

P68826

Uniprot

brenda

Staphylococcus aureus

-

720445, 732998, 733109, 734520

-

-

brenda

Staphylococcus aureus

-

756501, 757785

P68826

Uniprot

brenda

Staphylococcus aureus

different strains

733786

-

-

brenda

Staphylococcus aureus

MRSA

756184

P68826

Uniprot

brenda

Staphylococcus aureus

strain ATCC2913

666015

P68826

Uniprot

brenda

Staphylococcus aureus

two functional deformylases

393816

-

-

brenda

Staphylococcus aureus

type II PDF

756536

P68826

Uniprot

brenda

Staphylococcus epidermidis

-

697258, 711415, 711950, 719052, 733786

-

-

brenda

Staphylococcus epidermidis

isoform PDF-1; strain ATCC35984/RP62A

712968

Q5HQ78

UniProt

brenda

Staphylococcus epidermidis

isoform PDF-2; strain ATCC35984/RP62A

712968

Q5HPX6

UniProt

brenda

Streptococcus pneumoniae

-

657299, 697258, 711950, 719067

-

-

brenda

Streptococcus pneumoniae

strain ATCC6305

666015

Q9F2F0

Uniprot

brenda

Streptococcus pneumoniae

two functional deformylases

393819

-

-

brenda

Streptococcus pyogenes

-

733109

-

-

brenda

Streptococcus pyogenes

two functional deformylases

393819

-

-

brenda

Thermotoga maritima

-

393820

-

-

brenda

Thermotoga maritima

-

666015

P96113

Uniprot

brenda

Xanthomonas oryzae pv. oryzae

-

695340

-

-

brenda

Xanthomonas oryzae pv. oryzae

-

757033

Q5H3Z2

UniProt

brenda